OperaMate: An R package of Data Importing, Processing and Analysis for Opera High Content Screening System

OperaMate is a flexible R package dealing with the data generated by PerkinElmer's Opera High Content Screening System. The functions include the data importing, normalization and quality control, hit detection and function analysis.

Author
Chenglin Liu
Date of publication
None
Maintainer
Chenglin Liu <cliu@sjtu.edu.cn>
License
GPL (>= 3)
Version
1.6.0

View on Bioconductor

Man pages

cellData-class
The cellData class
cellLoad
Data importing
cellMean
Mean of two cellData objects
cellNorm
Data normalization
cellNumLoad
Load cell number
cellQC
Quality control
cellSig
Hit identification
cellSigAnalysis
Hits function analysis
cellSigAnalysisPlot
The barplot of enrichment functions
cellSigPlot
Hits volcano plot
cellViz
Data visualization
data
Examples of tables and cellData objects
expData-class
The expData class
generateReport
Report generation
loadAll
Data importing
nameParser
Plate information extraction
operaMate
Data process and analysis pipeline
parseTemplete
Data extraction from one report

Files in this package

OperaMate/DESCRIPTION
OperaMate/NAMESPACE
OperaMate/R
OperaMate/R/cellData-class.R
OperaMate/R/cellData-methods.R
OperaMate/R/dataprocess.R
OperaMate/R/expData-class.R
OperaMate/R/expData-methods.R
OperaMate/R/functions.R
OperaMate/R/zzz.R
OperaMate/build
OperaMate/build/vignette.rds
OperaMate/data
OperaMate/data/demoCell.rda
OperaMate/data/demoCellNum.rda
OperaMate/data/platemap.rda
OperaMate/inst
OperaMate/inst/Test
OperaMate/inst/Test/Matrix
OperaMate/inst/Test/Matrix/130504-s1-02.txt
OperaMate/inst/Test/Matrix/130504-s1-03.txt
OperaMate/inst/Test/Matrix/Matrix.130506-s2-02.txt
OperaMate/inst/Test/Matrix/Matrix.130506-s2-03.txt
OperaMate/inst/Test/Matrix/Matrix.130508-s3-02.txt
OperaMate/inst/Test/Matrix/Matrix.130508-s3-03.txt
OperaMate/inst/Test/Matrix/Matrix.130607-s1-04.txt
OperaMate/inst/Test/Matrix/Matrix.130609-s2-04.txt
OperaMate/inst/Test/Matrix/Matrix.130611-s3-04.txt
OperaMate/inst/Test/Tab
OperaMate/inst/Test/Tab/Tab.130504-s1-01.txt
OperaMate/inst/Test/Tab/Tab.130506-s2-01.txt
OperaMate/inst/Test/Tab/Tab.130508-s3-01.txt
OperaMate/inst/Test/demoData
OperaMate/inst/Test/demoData/demoParam.txt
OperaMate/inst/Test/demoData/genemap.csv
OperaMate/inst/doc
OperaMate/inst/doc/OperaMate-manual.pdf
OperaMate/inst/doc/OperaMate-vignette.R
OperaMate/inst/doc/OperaMate-vignette.Rnw
OperaMate/inst/doc/OperaMate-vignette.pdf
OperaMate/inst/doc/param.txt
OperaMate/man
OperaMate/man/cellData-class.Rd
OperaMate/man/cellLoad.Rd
OperaMate/man/cellMean.Rd
OperaMate/man/cellNorm.Rd
OperaMate/man/cellNumLoad.Rd
OperaMate/man/cellQC.Rd
OperaMate/man/cellSig.Rd
OperaMate/man/cellSigAnalysis.Rd
OperaMate/man/cellSigAnalysisPlot.Rd
OperaMate/man/cellSigPlot.Rd
OperaMate/man/cellViz.Rd
OperaMate/man/data.Rd
OperaMate/man/expData-class.Rd
OperaMate/man/generateReport.Rd
OperaMate/man/loadAll.Rd
OperaMate/man/nameParser.Rd
OperaMate/man/operaMate.Rd
OperaMate/man/parseTemplete.Rd
OperaMate/vignettes
OperaMate/vignettes/OperaMate-vignette.Rnw
OperaMate/vignettes/OperaMate-vignette.bib
OperaMate/vignettes/normplot.png
OperaMate/vignettes/qcplot.png
OperaMate/vignettes/sigplot.png